Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010713
Fusion event
HBV-SHD integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
Polymerase|
Start
2621
Orient
+
Integrated sequence
CCTCATTGGAAAACACCATCTTTTCCTAATATACATTTACACCAAGACATTATCAAAAAATGTGAACAGTTTGTAGGCCCACTCACAGTTAATGAGAAAA| |GAAGATTGCAATTGATTATGCCTGCCAGGTTTTATCCAAAGGTTACCAAATATTTACCATTGGATAAGGGTATTAAACCTTATTATCCAGAACATCTAGT
Host Sequence
Chromosome
chr19
Cytoband
p13.3
Reference genome
Start
End
4290872/4290875 (Hg38)
Orient
-
Location type
downstream
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1227/Upstream/329363; hsa-let-7e/Downstream/155103;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/10638, chr19-CpG: 58/Downstream/13670
Upstream sequence
CGGGAAAGCCCTAAGCAGCCCTGGAGAGGGGGATAATGGGGTAATTGAAACCCTGGAGGAggccaggcacggtggctcacgcctgtaatcccagcacttt
Downstream sequence
gggaggttgaggcaggcagatcacctgaggttgggagttcgagaccatcctgaccaacacggagaaaccgcgtctctactaaaaatacaaaattaaccgg
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.